genome.fa.s2.2.7.7.80.10.50.1000.31.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  31  of  206  ( 24623 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9151235--9151301	34	1.9	35	90	3	109	46	13	8	31	1.74
9151615--9151643	14	2.0	15	93	6	51	55	13	3	27	1.55
9156637--9156711	23	3.3	23	96	0	132	33	28	21	17	1.96
9162675--9162709	18	1.9	18	88	0	52	54	17	0	28	1.43
9166858--9166922	3	21.7	3	90	0	103	64	1	3	30	1.18
9166847--9166922	12	5.8	13	85	13	72	61	2	3	31	1.28
9168070--9168125	22	2.5	23	82	2	69	51	1	1	44	1.22
9168101--9168140	16	2.5	16	91	0	62	50	2	5	42	1.37
9168133--9168338	68	3.1	68	96	1	371	40	4	9	45	1.56
9168213--9168240	9	3.1	9	100	0	56	32	0	10	57	1.33
9168281--9168308	9	3.1	9	100	0	56	32	0	10	57	1.33
9168405--9168448	24	1.9	24	90	9	74	61	2	0	36	1.09
9185419--9185444	6	4.3	6	100	0	52	19	34	15	30	1.93
9190729--9190790	25	2.4	24	81	10	61	69	4	11	14	1.34
9193263--9193301	18	2.2	17	86	13	53	33	0	20	46	1.51
9193528--9193625	23	4.3	23	97	0	178	17	21	27	33	1.96
9195020--9195060	21	2.0	21	90	0	64	31	4	9	53	1.55
9202673--9202701	4	7.2	4	100	0	58	48	27	0	24	1.51
9203620--9203653	8	4.2	8	84	0	50	58	0	0	41	0.98
9207333--9207560	44	5.2	46	67	16	112	26	23	20	29	1.99
9207637--9208282	44	14.7	43	71	15	398	28	22	17	31	1.97
9207613--9208282	89	7.6	89	86	5	920	28	22	17	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9209600--9209638	7	5.6	7	82	11	53	12	17	0	69	1.19
9210579--9210619	20	2.0	20	90	9	66	65	4	14	14	1.42
9214379--9214623	122	2.0	122	95	0	436	26	16	30	26	1.97
9216823--9216912	37	2.4	37	85	5	110	18	14	37	28	1.91
9218651--9218684	17	1.9	17	88	5	50	58	0	2	38	1.13
9224308--9224332	7	3.6	7	100	0	50	88	0	0	12	0.53
9226384--9226466	28	3.0	27	72	10	71	21	21	24	32	1.98
9226407--9226458	14	3.9	14	77	7	54	23	21	23	32	1.98
9226476--9226581	23	4.5	23	63	11	61	39	16	16	27	1.90
9226564--9226688	45	2.8	45	73	16	123	31	12	24	31	1.93
9226728--9226798	29	2.5	28	79	4	81	23	16	26	32	1.96
9228243--9228304	27	2.4	27	86	5	83	41	9	0	48	1.36
9228355--9228415	27	2.3	27	91	0	95	31	24	31	13	1.93
9229279--9229331	27	2.0	27	92	7	90	13	30	22	33	1.92
9229282--9229340	27	2.2	27	84	6	75	13	27	27	32	1.94
9229383--9229450	28	2.5	28	92	2	111	50	0	5	44	1.26
9237259--9237309	16	3.2	15	76	20	50	35	3	5	54	1.43
9238804--9239083	91	3.1	90	75	7	282	31	24	12	31	1.93
9241280--9241326	2	23.5	2	100	0	94	51	0	0	48	1.00
9241783--9241892	41	2.7	41	82	2	132	29	18	21	30	1.97
9252275--9252313	2	19.5	2	100	0	78	51	0	0	48	1.00
9254944--9255005	31	2.0	31	83	0	79	37	19	4	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9255442--9255485	20	2.2	20	83	0	52	50	20	2	27	1.60
9257195--9257230	2	17.0	2	88	11	54	47	5	0	47	1.25
9260271--9260303	2	16.5	2	100	0	66	51	0	0	48	1.00
9267770--9267860	45	2.0	45	100	0	182	27	10	28	32	1.91
9274933--9275194	36	7.2	35	71	11	197	17	20	20	41	1.90
9274933--9275230	73	4.1	73	91	2	433	16	20	20	41	1.90
9275054--9275243	37	5.2	36	64	16	104	16	22	17	43	1.88
9276752--9276795	22	2.0	22	95	0	79	52	9	15	22	1.71
9278678--9278990	43	7.3	43	85	2	416	25	29	19	25	1.99
9278678--9278990	85	3.7	84	86	3	428	25	29	19	25	1.99
9278682--9279024	128	2.7	127	84	2	436	25	29	19	25	1.98
9283134--9283166	16	2.1	16	88	11	50	57	0	0	42	0.98
9283275--9283309	15	2.4	14	86	9	52	45	31	0	22	1.53
9283334--9283372	14	2.8	14	84	0	51	51	33	0	15	1.44
9285317--9285365	25	2.0	24	88	4	71	20	26	4	48	1.67
9286665--9286691	6	4.5	6	100	0	54	0	29	0	70	0.88
9294919--9294969	18	2.7	20	82	14	63	56	3	0	39	1.18
9294993--9295026	15	2.2	16	94	5	61	70	5	0	23	1.09
9296189--9296248	29	2.1	29	87	0	84	28	8	16	46	1.76
9296386--9296470	31	2.8	30	76	11	84	40	11	9	38	1.74
9301039--9301089	18	2.7	20	82	14	63	56	3	0	39	1.18
9301115--9301144	15	1.9	16	93	6	53	70	6	0	23	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9302286--9302317	11	2.9	11	95	0	55	50	9	18	21	1.75
9302457--9302526	29	2.3	29	85	4	86	35	10	14	40	1.79
9303049--9303083	17	2.0	17	88	5	52	37	14	0	48	1.44
9304769--9304806	19	2.0	19	100	0	76	36	15	5	42	1.70
9310175--9310268	19	4.8	19	90	5	152	37	10	15	36	1.83
9310175--9310275	40	2.7	38	88	8	152	37	9	16	35	1.82
9310207--9310291	21	4.0	22	79	14	81	37	7	16	38	1.76
9310257--9310301	23	2.0	23	86	4	65	33	4	15	46	1.66
9311417--9311456	19	2.0	20	85	4	55	32	5	10	52	1.56
9311697--9311887	98	1.9	98	96	0	355	27	10	25	37	1.88
9315884--9315916	12	2.8	12	90	0	57	87	12	0	0	0.53
9317255--9318056	132	6.0	132	92	0	1309	28	18	23	29	1.98
9323936--9323994	1	59.0	1	75	0	55	88	10	0	1	0.60
9323936--9323994	20	2.9	19	87	7	82	88	10	0	1	0.60
9325391--9327888	132	18.9	132	93	0	4208	28	18	23	29	1.98
9325770--9325951	44	4.1	43	66	12	100	28	22	22	26	1.99
9326003--9326732	44	16.6	44	64	15	134	28	17	24	28	1.98
9327331--9327517	44	4.2	44	69	15	116	29	17	24	28	1.97
9328117--9328210	19	4.8	19	89	5	143	38	9	15	36	1.81
9328117--9328218	40	2.7	38	86	8	145	39	8	16	35	1.80
9328149--9328233	19	4.0	22	77	14	81	38	5	16	38	1.73
9328199--9328243	23	2.0	23	86	4	65	33	4	15	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9328742--9328813	3	24.0	3	86	10	103	33	1	1	63	1.11
9329663--9329857	98	2.0	98	91	2	320	29	10	23	37	1.87
9330274--9330298	12	2.1	12	100	0	50	40	16	0	44	1.47
9335290--9335331	19	2.3	19	79	4	50	76	0	9	14	1.02
9338498--9338532	18	2.0	17	88	5	52	45	0	0	54	0.99
9338689--9338785	44	2.2	45	85	5	126	32	28	5	32	1.79
9338765--9338845	16	5.1	16	93	0	144	20	35	4	38	1.75
9383832--9383931	42	2.4	42	86	0	137	37	9	26	28	1.86
9385122--9385166	16	2.8	16	96	0	81	13	26	28	31	1.94
9385138--9385334	41	4.8	41	91	0	259	17	19	30	31	1.95
9390867--9390905	14	2.8	13	85	11	51	71	5	5	17	1.23
9394074--9394103	15	2.0	15	93	0	51	76	0	0	23	0.78
9394193--9394236	21	2.1	21	87	8	63	59	2	2	36	1.23
9394207--9394294	9	9.6	8	73	23	59	65	4	1	28	1.19
9394198--9394324	29	4.4	27	78	17	91	63	3	1	30	1.21
9394209--9394343	47	2.8	48	81	10	143	65	3	2	28	1.22
9394224--9394345	8	14.4	8	70	24	65	63	3	2	30	1.23
9394283--9394335	21	2.7	19	86	13	72	64	1	1	32	1.15
9394190--9394334	10	15.0	10	71	22	57	63	3	2	31	1.22
9394731--9394791	28	2.1	28	87	3	86	32	0	6	60	1.22
9394969--9395060	10	9.2	10	71	16	50	26	4	1	68	1.15
9394989--9395052	21	3.2	21	80	12	64	25	4	0	70	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9394969--9395077	9	11.4	9	71	14	69	25	4	0	68	1.14
9395567--9395606	20	2.0	20	90	0	62	37	25	5	32	1.77
9395724--9395763	3	13.3	3	94	0	71	70	0	30	0	0.88
9395973--9396022	20	2.3	22	86	10	68	78	0	22	0	0.76
9396122--9396157	3	12.0	3	93	0	63	0	30	0	69	0.89
9397748--9397940	104	1.9	104	88	0	296	29	13	27	28	1.95
9398158--9398230	23	3.2	22	84	5	92	27	10	17	43	1.83
9398191--9398264	23	3.2	23	84	0	76	18	14	24	41	1.89
9401012--9401069	11	5.4	11	78	12	66	39	5	0	55	1.22
9401004--9401078	32	2.4	31	84	6	98	34	4	0	61	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206